Migrating Relational Databases into XML Documents

Maatuk, Abdelsalam M.; Abdelaziz, Tawfig M.; Ali, Muhammad

doi:10.1109/acit50332.2020.9299967

Cited by 5 publications

(6 citation statements)

References 11 publications

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“…These tools can be used to access data that is usually associated with relational databases, in which information is formatted into rows and columns within tables. Most database management systems (DBMS) are constructed for structural data, where data is arranged in entities, where similar entities collected together, as either relations in relational databases or classes in object-oriented databases [17,29]. In these databases, entities in the same collection have the same attributes, which are same for all entities in a group: they have similar defined configuration, may have a predefined length, and are in the same order in each record.…”

Section: Srs and Entrez Structured Data Retrieval Toolsmentioning

confidence: 99%

“…There is argument over whether SRS supports data structure through providing exact indices for implementing list of sub-entities [19,16,17,20]. It works well with simple keywords, using the extended web form.…”

Section: Srs and Entrez Structured Data Retrieval Toolsmentioning

confidence: 99%

“…It works well with simple keywords, using the extended web form. However, some work argue that the shortcoming of SRS cannot deal with a satisfied way within complex enquires involving numerical data or calculations, and that users need to take long time to deal with the mixture of information [19,17]. Entrez has also been proven to be a powerful tool with simple queries, but one that has severe limitations with respect to retrieving subs-entities that need to be manually extracted.…”

Section: Srs and Entrez Structured Data Retrieval Toolsmentioning

confidence: 99%

“…Entrez allows easy retrieval of information from internal structured data [18,20]. However, the limitation of this server is poorly adapted because it inefficiently deals with subsequence [17].…”

Section: Srs and Entrez Structured Data Retrieval Toolsmentioning

confidence: 99%

“…Perl gives access to data stores in GenBank database via flexible series of sequences. The high throughput technologies usually require the extraction of large data sets of the data related with sequence information [17]. SRS and Entrez are keywords tools for retrieving entries from GenBank or EMBL databases, which find certain limitations in querying complex keywords.…”

Section: Perl and Bioperl Semi-structured Data Search Toolsmentioning

confidence: 99%

See 4 more Smart Citations

Performance Evaluation of Structured and Semi-Structured Bioinformatics Tools : A Comparative Study

Moftah¹,

Maatuk²,

White³

2018

IJSEA

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There is a wide range of available biological databases developed by bioinformatics experts, employing different methods to extract biological data. In this paper, we investigate and evaluate the performance of some of these methods in terms of their ability to efficiently access bioinformatics databases using webbased interfaces. These methods retrieve bioinformatics information using structured and semi-structured data tools, which are able to retrieve data from remote database servers. This study distinguishes each of these approaches and contrasts these tools. We used Sequence Retrieval System (SRS) and Entrez search tools for structured data, while Perl and BioPerl search programs were used for semi-structured data to retrieve complex queries including a combination of text and numeric information. The study concludes that the use of semi-structured data tools for accessing bioinformatics databases is a viable alternative to the structured tools, though each method is shown to have certain inherent advantages and disadvantages.

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Section: Srs and Entrez Structured Data Retrieval Toolsmentioning

confidence: 99%